Apparently Yosemite has clarified how they feel about alcohol stoves:
"As of July 15, 2014, fires in the wilderness are prohibited below 6,000 feet, except for fires in portable stoves using pressurized gas, liquid fuel, propane, or alcohol. Twig stoves are not allowed below 6,000 feet. This restriction is due to hire [sic] fire danger."
This is now exactly how SEKI words their restrictions as well, which are nice and clear.